BLASTP 2.2.26 [Sep-21-2011]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.


Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 025399
         (253 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|3VKW|A Chain A, Crystal Structure Of The Superfamily 1 Helicase From
           Tomato Mosaic Virus
          Length = 446

 Score = 30.0 bits (66), Expect = 1.3,   Method: Compositional matrix adjust.
 Identities = 23/83 (27%), Positives = 38/83 (45%), Gaps = 2/83 (2%)

Query: 122 KLQVDRLALEQPSAECVADILHMVDQESLGLQNHLLNEDYSLAQEALVQSKLDITPTQER 181
           KL+VD +   + +  C AD+ H ++Q   G      +E  S++QE +V     I P  + 
Sbjct: 289 KLEVDEVETRRTTLRCPADVTHFLNQRYEGHVMCTSSEKKSVSQE-MVSGAASINPVSKP 347

Query: 182 SFFR-MGLSYGDAFASRMRGYMD 203
              + +  +  D  A   RGY D
Sbjct: 348 LKGKILTFTQSDKEALLSRGYAD 370


>pdb|1X9X|A Chain A, Solution Structure Of Dimeric Sam Domain From Mapkkk Ste11
 pdb|1X9X|B Chain B, Solution Structure Of Dimeric Sam Domain From Mapkkk Ste11
          Length = 68

 Score = 28.1 bits (61), Expect = 5.0,   Method: Composition-based stats.
 Identities = 14/32 (43%), Positives = 20/32 (62%)

Query: 91  DLVDEEQTKYLSRGKLYDAVASRIGHRLKKLK 122
           +LV EE+ KYL +  L     ++IG RLK L+
Sbjct: 30  NLVTEEEIKYLDKDILIALGVNKIGDRLKILR 61


>pdb|2GRY|A Chain A, Crystal Structure Of The Human Kif2 Motor Domain In
           Complex With Adp
          Length = 420

 Score = 27.3 bits (59), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 14/44 (31%), Positives = 26/44 (59%), Gaps = 1/44 (2%)

Query: 104 GKLYDAVASRIGHR-LKKLKLQVDRLALEQPSAECVADILHMVD 146
           GK++D +  +   R L+  K QV  + L++   +CV D+L ++D
Sbjct: 239 GKVFDLLNRKTKLRVLEDGKQQVQVVGLQEREVKCVEDVLKLID 282


  Database: pdbaa
    Posted date:  Mar 3, 2013 10:34 PM
  Number of letters in database: 14,973,337
  Number of sequences in database:  62,578
  
Lambda     K      H
   0.321    0.138    0.408 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,573,533
Number of Sequences: 62578
Number of extensions: 310660
Number of successful extensions: 825
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 821
Number of HSP's gapped (non-prelim): 7
length of query: 253
length of database: 14,973,337
effective HSP length: 97
effective length of query: 156
effective length of database: 8,903,271
effective search space: 1388910276
effective search space used: 1388910276
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)